FastQC Summary

Summary statistics for all libraries
Filename Total Flagged As Poor Quality Sequence Length %GC
ERR1698341.fastq.gz 39,857,024 0 8-354 46
ERR1698342.fastq.gz 33,552,723 0 8-372 48
ERR1698343.fastq.gz 41,996,847 0 8-371 46
ERR1698344.fastq.gz 37,953,454 0 8-359 49
ERR1698345.fastq.gz 39,573,075 0 8-370 46
ERR1698346.fastq.gz 27,021,234 0 8-371 45
ERR1698347.fastq.gz 28,984,666 0 8-369 47
ERR1698348.fastq.gz 38,530,802 0 8-368 46
ERR1698349.fastq.gz 39,745,481 0 8-370 45
ERR1698350.fastq.gz 39,204,781 0 8-374 46
ERR1698351.fastq.gz 38,709,756 0 8-373 46
ERR1698352.fastq.gz 33,956,077 0 8-370 45
ERR2206799.fastq.gz 19,741,198 0 8-369 50
ERR2206800.fastq.gz 21,248,836 0 8-370 49
ERR2206801.fastq.gz 19,692,093 0 8-370 49
ERR2206802.fastq.gz 19,737,758 0 8-369 51
ERR2206803.fastq.gz 14,064,762 0 8-370 50
ERR2206804.fastq.gz 18,336,786 0 8-370 51
ERR2206805.fastq.gz 14,963,248 0 8-370 50
ERR2206806.fastq.gz 13,291,577 0 8-369 50
ERR2206807.fastq.gz 22,141,691 0 8-369 49
ERR2206808.fastq.gz 19,379,328 0 8-371 49
ERR2206809.fastq.gz 20,509,164 0 8-369 47
ERR2206810.fastq.gz 21,512,379 0 8-368 50
SRR2138286.fastq.gz 15,021,139 0 51-51 48
SRR2138287.fastq.gz 13,876,905 0 51-51 49
SRR2138288.fastq.gz 14,800,750 0 51-51 49
SRR2138289.fastq.gz 13,994,445 0 51-51 47
SRR2138290.fastq.gz 14,183,810 0 51-51 48
SRR2138291.fastq.gz 14,926,613 0 51-51 48
SRR2138292.fastq.gz 13,988,828 0 51-51 47
SRR2138293.fastq.gz 15,175,326 0 51-51 48
SRR2138294.fastq.gz 14,510,635 0 51-51 48
SRR2138295.fastq.gz 14,406,398 0 51-51 47
SRR2180293.fastq.gz 23,391,156 0 50-50 52
SRR2180294.fastq.gz 22,792,222 0 50-50 43
SRR2180295.fastq.gz 17,265,487 0 50-50 48
SRR2180296.fastq.gz 22,787,103 0 50-50 54
SRR2180297.fastq.gz 18,414,153 0 50-50 45
SRR2180298.fastq.gz 26,125,642 0 50-50 43
SRR2180299.fastq.gz 20,524,361 0 50-50 44
SRR2180300.fastq.gz 18,003,351 0 50-50 45

Read Totals

Library Sizes ranged between 13,291,577 and 41,996,847 reads.

Read totals for each library. Duplicated reads are conventionally an high overestimate at this point.

FastQC Summary

Summary of FastQC flags for each parameter

Per Base Sequence Quality

Heatmap showing mean base qualities for each library

Per Sequence Quality Scores

Heatmap showing mean sequence qualities for each library

Per Base Sequence Content

Heatmap of summed base distributions along each read

Per Sequence GC Content

GC Content Heatmap normalised to theoretical GC content in the Hsapiens Transcriptome

GC Content Distributions for all reads showing theoretical GC content from the Hsapiens Transcriptome

Sequence Length Distribution

Sequence Duplication Levels

Adapter Content

Universal Adapter Content

Overrepresented Summary

Total overrepresented sequences for each library

Total overrepresented sequences for each library

Overrepresented Sequences

## Overrepresented_sequences missing from ERR1698343.fastq.gz
## Overrepresented_sequences missing from ERR1698345.fastq.gz
## Overrepresented_sequences missing from SRR2180294.fastq.gz
## Overrepresented_sequences missing from SRR2180300.fastq.gz
Summary of the most overrepresented sequences in all files. A maximum of 30 sequences are shown
Sequence Total Present In Overall Percentage Max_Percentage Possible_Source
AGTGGACTATGCCGATCGGGTGTCCGCACTAAGTTCGGTATCGATATGGT 2,018,265 14 0.20638913% 1.6336669% No Hit
GCTGCGAGAACTAATGTGAATTGCAGGACACATCGATCATCGACACTTCG 1,281,786 1 0.13107630% 6.4940810% No Hit
TGACCGATGGGAACTTACGACGCCCCTGGGGTAGGCCCCTCGCCCGGTCC 1,068,074 19 0.10922196% 0.7915400% No Hit
CTAAGTTCGGTATCGATATGGTGCTCCTGGGGGAGCCTTGGACTACCAGG 886,796 12 0.09068435% 0.8211505% No Hit
AGACACCATGATCAGGAAGGTGGTTCACCCAGGGTGAGGCTCAACCATTG 531,645 14 0.05436637% 0.2251370% No Hit
ACTACCAGGTCGTCTAAGGAGGGGTGAACCGGCCCAGGTCGGAGACGGAG 438,924 7 0.04488466% 0.2832567% No Hit
AGGTCGTCTAAGGAGGGGTGAACCGGCCCAGGTCGGAGACGGAGCAGGTC 427,265 12 0.04369241% 0.2266630% No Hit
CTAAGTTCGGTATCGATATGGTGCTCCTGGGGGGAGCCTTGGACTACCAG 380,194 6 0.03887889% 0.6866078% No Hit
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 316,958 10 0.03241234% 0.2489987% No Hit
TACCAGGTCGTCTAAGGAGGGGTGAACCGGCCCAGGTCGGAGACGGAGCA 308,256 6 0.03152247% 0.2293006% No Hit
CCTCACGGTACTTGTCCGCTATCGGTCTCGTGCCGGTATTTAGCCTTAGAT 253,501 10 0.02592318% 0.1992548% No Hit
AGACACCATGATCAAGAAGGTGGTTCACCCAGGGTGAGGCTCAGCCATTG 253,141 8 0.02588637% 0.1600596% No Hit
GGGAGTTTGACTGGGGCGGTACACCTGTCAAACGGTAACGCAGGTGTCCT 250,531 3 0.02561947% 0.5068796% No Hit
GTTGGATTGTTCACCCACTAATAGGGAACGTGAGCTGGGTTTAGACCGTC 222,290 3 0.02273152% 0.5344778% No Hit
CTTCGATGTCGGCTCTTCCTATCATTGTGAAGCAGAATTCACCAAGCGTT 221,587 3 0.02265964% 0.4849936% No Hit
GCCCTCCGTACGCCACAGGTCCCTCGCCCTCGGCAGAGGGGCGGGGATTCG 204,280 10 0.02088981% 0.1549045% No Hit
AAGTTCGGTATCGATATGGTGCTCCTGGGGGAGCCTTGGACTACCAGGTC 197,739 7 0.02022092% 0.2016374% No Hit
AGATCCAAAACCCATCCGGGTGCGGCGTGGGCTCCCCCTTCGGGGTCGGGCCTCGTCCCCCGGCCGC 184,000 2 0.01881596% 0.2844484% No Hit
GCTGCGAGAATTAATGTGAATTGCAGGACACACACAGATCATCGACCTTT 175,443 1 0.01794092% 0.8888700% No Hit
CCGGTATTTAGCCTTAGATGGAGTTTACCACCCGCTTTGGGCTGCATTCCC 172,547 9 0.01764477% 0.1459895% No Hit
GCCCTGTTGAACTCTCTCTTCAAAGTTCTTTTCAACTTTCCCTCACGGTAC 171,631 9 0.01755110% 0.1438049% No Hit
GGCGTACGGAAGACCCGCTCCCCGGCGCCGCTCGTGGGGGGCCCAAGTCC 151,405 3 0.01548278% 0.2831602% No Hit
TCGTCTAAGGAGGGGTGAACCGGCCCAGGTCGGAGACGGAGCAGGTCAAAGCCCCCGTGCCGATCAGTAGTG 150,088 4 0.01534810% 0.1328613% No Hit
CTCTGATCGTTTTTTCACTGACCCGGTGAGGCGGGGGGGCGAGCCCCGAG 137,137 3 0.01402372% 0.3026229% No Hit
CAACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCAGC 134,643 1 0.01376868% 0.6821595% No Hit
GTCGGCTCTTCCTATCATTGTGAAGCAGAATTCACCAAGCGTTGGATTGT 133,303 3 0.01363165% 0.2496371% No Hit
GTCGCTTTTTGATCCTTCGATGTCGGCTCTTCCTATCATTGTGAAGCAGA 132,948 3 0.01359535% 0.2791009% No Hit
GCCCAGTGCTCTGAATGTCAAAGTGAAGAAATTCAATGAAGCGCGGGTAA 126,556 3 0.01294170% 0.2672762% No Hit
AGGACACATCGATCATCGACACTTCGAACGCACTTTGCGGCCCCGGGTTC 125,548 1 0.01283862% 0.6360803% No Hit
CCTAAGGCGAGCTCAGGGAGGACAGAAACCTCCCGTGGAGCAGAAGGGCA 124,005 3 0.01268083% 0.2547143% No Hit

Session Information

R version 3.6.1 (2019-07-05)

Platform: x86_64-apple-darwin15.6.0 (64-bit)

locale: en_AU.UTF-8||en_AU.UTF-8||en_AU.UTF-8||C||en_AU.UTF-8||en_AU.UTF-8

attached base packages: parallel, stats, graphics, grDevices, utils, datasets, methods and base

other attached packages: readr(v.1.3.1), stringr(v.1.4.0), magrittr(v.1.5), scales(v.1.1.0), pander(v.0.6.3), kableExtra(v.1.1.0), dplyr(v.0.8.5), ngsReports(v.1.2.0), tibble(v.2.1.3), ggplot2(v.3.3.0) and BiocGenerics(v.0.32.0)

loaded via a namespace (and not attached): bitops(v.1.0-6), matrixStats(v.0.56.0), lubridate(v.1.7.4), webshot(v.0.5.2), RColorBrewer(v.1.1-2), httr(v.1.4.1), GenomeInfoDb(v.1.22.0), tools(v.3.6.1), R6(v.2.4.1), lazyeval(v.0.2.2), colorspace(v.1.4-1), withr(v.2.1.2), tidyselect(v.1.0.0), compiler(v.3.6.1), rvest(v.0.3.5), Biobase(v.2.46.0), Cairo(v.1.5-11), flashClust(v.1.01-2), xml2(v.1.2.5), DelayedArray(v.0.12.2), plotly(v.4.9.2), ggdendro(v.0.1-20), labeling(v.0.3), digest(v.0.6.25), Rsamtools(v.2.2.3), rmarkdown(v.2.1), XVector(v.0.26.0), jpeg(v.0.1-8.1), pkgconfig(v.2.0.3), htmltools(v.0.4.0), FactoMineR(v.2.3), highr(v.0.8), htmlwidgets(v.1.5.1), rlang(v.0.4.5), rstudioapi(v.0.11), farver(v.2.0.3), zoo(v.1.8-7), hwriter(v.1.3.2), jsonlite(v.1.6.1), crosstalk(v.1.1.0.1), BiocParallel(v.1.20.1), RCurl(v.1.98-1.1), GenomeInfoDbData(v.1.2.2), leaps(v.3.1), Matrix(v.1.2-18), Rcpp(v.1.0.4), munsell(v.0.5.0), S4Vectors(v.0.24.3), lifecycle(v.0.2.0), scatterplot3d(v.0.3-41), stringi(v.1.4.6), yaml(v.2.2.1), MASS(v.7.3-51.5), SummarizedExperiment(v.1.16.1), zlibbioc(v.1.32.0), plyr(v.1.8.6), grid(v.3.6.1), ggrepel(v.0.8.2), crayon(v.1.3.4), lattice(v.0.20-40), Biostrings(v.2.54.0), hms(v.0.5.3), knitr(v.1.28), pillar(v.1.4.3), GenomicRanges(v.1.38.0), reshape2(v.1.4.3), stats4(v.3.6.1), glue(v.1.3.2), evaluate(v.0.14), ShortRead(v.1.44.3), latticeExtra(v.0.6-29), data.table(v.1.12.8), vctrs(v.0.2.4), png(v.0.1-7), gtable(v.0.3.0), purrr(v.0.3.3), tidyr(v.1.0.2), assertthat(v.0.2.1), xfun(v.0.12), viridisLite(v.0.3.0), truncnorm(v.1.0-8), GenomicAlignments(v.1.22.1), IRanges(v.2.20.2), cluster(v.2.1.0) and ellipsis(v.0.3.0)